ProToMEx: Rapid, Interpretable Explanations via Structured Representations

Interpretability is central for scientific machine learning, as understanding why models make predictions enables hypothesis generation and validation. While tabular foundation models show strong performance, existing explanation methods like SHAP are computationally expensive, limiting interactive exploration. We introduce ShapPFN, a foundation model that integrates Shapley value regression directly into its architecture, producing both predictions and explanations in a single forward pass. On standard benchmarks, ShapPFN achieves competitive performance while producing high-fidelity explanations ($R^2$=0.96, cosine=0.99) over 1000\times faster than KernelSHAP (0.06s vs 610s). Our code is available at https://github.com/kunumi/ShapPFN

Formal explainability provides mathematically grounded justifications for individual predictions. However, abductive explanations often exceed human cognitive limits by involving too many features, while probabilistic relaxations have remained largely limited to categorical classification. We present a unified framework for probabilistic explainability based on sparse, anchored linear models, applicable to both binary classification and continuous regression. By mapping instances to the Boolean hypercube, our linear explanations strictly generalize subset-based approaches: they capture both the magnitude and direction of feature contributions while enforcing a prescribed sparsity budget $k$. We show that minimizing the relevance error for such explanations is \ClassNPPP-hard when the underlying model is a neural network, and we relate this intractable objective to a tractable surrogate---the fidelity error. For a parameterized family of local distributions, the relevance error of any $k$-sparse explanation is bounded by its fidelity error up to a multiplicative factor that remains small locally. We address the resulting empirical problem using two complementary approaches: a Mixed Integer Programming (MIP) formulation that yields provably optimal empirical solutions while maintaining polynomial sample complexity, and a polynomial-time Iterative Hard Thresholding (IHT) algorithm with provable approximation guarantees. Empirical evaluations show that, unlike state-of-the-art baselines such as LIME and MAPLE, our explanations satisfy both the anchoring and sparsity constraints by construction, while consistently achieving lower relevance error.

LLMs have advanced text classification, yet existing paradigms face a trade-off: supervised (label only) fine-tuning is scalable but offers limited reasoning on complex text and lacks broader model transparency, while discrete prompt optimization offers human-readable instructions but struggles with performance and scalability. We introduce eXTC (eXplainable Text Classifier) with three progressive stages: (1) learning a Standard Operating Procedure (SOP, or rulebook) in natural language via a new Structured Prompt Optimization algorithm; (2) SOP-grounded reasoning distillation from a large teacher LLM into a compact LM; and (3) expanding reasoning capabilities beyond the initial SOP via reinforcement learning. This design enables eXTC to provide (i) fast inference via a compact LM, with (ii) inference-time local reasoning traces, alongside a global, modular explanation of its learned domain rules, while (iii) significantly outperforming existing paradigms across diverse benchmarks in both classification performance and explanation quality, with stage-by-stage gains.